reorg, get parsimonious paralellism working, to go into squiggle.c
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C/alt/05-refactor-still-split-array/makefile
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107
C/alt/05-refactor-still-split-array/makefile
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@ -0,0 +1,107 @@
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# Interface:
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# make
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# make build
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# make format
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# make run
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# Compiler
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CC=gcc
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# CC=tcc # <= faster compilation
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# Main file
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SRC=samples.c
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OUTPUT=out/samples
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SRC_ONE_THREAD=./samples-one-thread.c
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OUTPUT_ONE_THREAD=out/samples-one-thread
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## Dependencies
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# Has no dependencies
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MATH=-lm
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## Flags
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DEBUG= #'-g'
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STANDARD=-std=c99
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WARNINGS=-Wall
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OPTIMIZED=-O3 #-O3 actually gives better performance than -Ofast, at least for this version
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OPENMP=-fopenmp
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## Formatter
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STYLE_BLUEPRINT=webkit
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FORMATTER=clang-format -i -style=$(STYLE_BLUEPRINT)
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## make build
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build: $(SRC)
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$(CC) $(OPTIMIZED) $(DEBUG) $(SRC) $(OPENMP) $(MATH) -o $(OUTPUT)
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static:
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$(CC) $(OPTIMIZED) $(DEBUG) $(SRC) $(OPENMP) $(MATH) -o $(OUTPUT)
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format: $(SRC)
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$(FORMATTER) $(SRC)
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run: $(SRC) $(OUTPUT)
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OMP_NUM_THREADS=1 ./$(OUTPUT) && echo
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multi:
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OMP_NUM_THREADS=1 ./$(OUTPUT) && echo
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OMP_NUM_THREADS=2 ./$(OUTPUT) && echo
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OMP_NUM_THREADS=4 ./$(OUTPUT) && echo
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OMP_NUM_THREADS=8 ./$(OUTPUT) && echo
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OMP_NUM_THREADS=16 ./$(OUTPUT) && echo
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## Timing
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time-linux:
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@echo "Requires /bin/time, found on GNU/Linux systems" && echo
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@echo "Running 100x and taking avg time: OMP_NUM_THREADS=1 $(OUTPUT)"
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@t=$$(/usr/bin/time -f "%e" -p bash -c 'for i in {1..100}; do OMP_NUM_THREADS=1 $(OUTPUT); done' 2>&1 >/dev/null | grep real | awk '{print $$2}' ); echo "scale=2; 1000 * $$t / 100" | bc | sed "s|^|Time using 1 thread: |" | sed 's|$$|ms|' && echo
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@echo "Running 100x and taking avg time: OMP_NUM_THREADS=2 $(OUTPUT)"
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@t=$$(/usr/bin/time -f "%e" -p bash -c 'for i in {1..100}; do OMP_NUM_THREADS=2 $(OUTPUT); done' 2>&1 >/dev/null | grep real | awk '{print $$2}' ); echo "scale=2; 1000 * $$t / 100" | bc | sed "s|^|Time using 2 threads: |" | sed 's|$$|ms|' && echo
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@echo "Running 100x and taking avg time: OMP_NUM_THREADS=4 $(OUTPUT)"
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@t=$$(/usr/bin/time -f "%e" -p bash -c 'for i in {1..100}; do OMP_NUM_THREADS=4 $(OUTPUT); done' 2>&1 >/dev/null | grep real | awk '{print $$2}' ); echo "scale=2; 1000 * $$t / 100" | bc | sed "s|^|Time for 4 threads: |" | sed 's|$$|ms|' && echo
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@echo "Running 100x and taking avg time: OMP_NUM_THREADS=8 $(OUTPUT)"
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@t=$$(/usr/bin/time -f "%e" -p bash -c 'for i in {1..100}; do OMP_NUM_THREADS=8 $(OUTPUT); done' 2>&1 >/dev/null | grep real | awk '{print $$2}' ); echo "scale=2; 1000 * $$t / 100" | bc | sed "s|^|Time using 8 threads: |" | sed 's|$$|ms|' && echo
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@echo "Running 100x and taking avg time: OMP_NUM_THREADS=16 $(OUTPUT)"
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@t=$$(/usr/bin/time -f "%e" -p bash -c 'for i in {1..100}; do OMP_NUM_THREADS=16 $(OUTPUT); done' 2>&1 >/dev/null | grep real | awk '{print $$2}' ); echo "scale=2; 1000 * $$t / 100" | bc | sed "s|^|Time using 16 threads: |" | sed 's|$$|ms|' && echo
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time-linux-fastest:
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@echo "Running 100x and taking avg time: OMP_NUM_THREADS=32 $(OUTPUT)"
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@t=$$(/usr/bin/time -f "%e" -p bash -c 'for i in {1..100}; do OMP_NUM_THREADS=16 $(OUTPUT); done' 2>&1 >/dev/null | grep real | awk '{print $$2}' ); echo "scale=2; 1000 * $$t / 100" | bc | sed "s|^|Time using 16 threads: |" | sed 's|$$|ms|' && echo
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time-linux-simple:
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@echo "Requires /bin/time, found on GNU/Linux systems" && echo
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OMP_NUM_THREADS=1 /bin/time -f "Time: %es" ./$(OUTPUT) && echo
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OMP_NUM_THREADS=2 /bin/time -f "Time: %es" ./$(OUTPUT) && echo
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OMP_NUM_THREADS=4 /bin/time -f "Time: %es" ./$(OUTPUT) && echo
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OMP_NUM_THREADS=8 /bin/time -f "Time: %es" ./$(OUTPUT) && echo
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OMP_NUM_THREADS=16 /bin/time -f "Time: %es" ./$(OUTPUT) && echo
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OMP_NUM_THREADS=32 /bin/time -f "Time: %es" ./$(OUTPUT) && echo
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## Profiling
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profile-linux:
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echo "Requires perf, which depends on the kernel version, and might be in linux-tools package or similar"
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echo "Must be run as sudo"
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$(CC) $(SRC) $(OPENMP) $(MATH) -o $(OUTPUT)
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# ./$(OUTPUT)
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# gprof:
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# gprof $(OUTPUT) gmon.out > analysis.txt
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# rm gmon.out
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# vim analysis.txt
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# rm analysis.txt
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# perf:
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OMP_NUM_THREADS=16 sudo perf record $(OUTPUT)
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sudo perf report
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rm perf.data
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## Install
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debian-install-dependencies:
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sudo apt-get install libomp-dev
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Binary file not shown.
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@ -6,7 +6,7 @@
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const float PI = 3.14159265358979323846;
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#define N_SAMPLES 1024 * 1000
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#define N_SAMPLES (1024 * 1000 )
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//Array helpers
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@ -180,36 +180,54 @@ float mixture(float (*samplers[])(uint32_t*), float* weights, int n_dists, uint3
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// Parallization function
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void paralellize(float (*sampler)(uint32_t* seed), float* results, int n_threads, int n_samples){
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if((N_SAMPLES % n_threads) != 0){
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fprintf(stderr, "Number of samples isn't divisible by number of threads, aborting\n");
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exit(1);
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}
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// int n_samples_per_thread = N_SAMPLES / n_thread;
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int sample_index, i, split_array_length;
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int n_samples_per_thread = N_SAMPLES / n_threads;
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float** split_results = malloc(n_threads * sizeof(float*));
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for(int i=0; i<n_threads; i++){
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split_results[i] = malloc(n_samples_per_thread * sizeof(float));
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}
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uint32_t** seeds = malloc(n_threads * sizeof(uint32_t*));
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for (uint32_t i = 0; i < n_threads; i++) {
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seeds[i] = malloc(sizeof(uint32_t));
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*seeds[i] = i + 1; // xorshift can't start with 0
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}
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#pragma omp parallel private(i, sample_index, split_array_length)
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int i;
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#pragma omp parallel private(i)
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{
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#pragma omp for
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for (i = 0; i < n_threads; i++) {
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// split_array_length = split_array_get_length(i, N_SAMPLES, n_threads);
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int lower_bound = i * (n_samples / n_threads);
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int upper_bound = ((i+1) * (n_samples / n_threads)) - 1;
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// printf("Lower bound: %d, upper bound: %d\n", lower_bound, upper_bound);
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for (int j = lower_bound; j < upper_bound; j++) {
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results[j] = sampler(seeds[i]);
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for (int j = 0; j < n_samples_per_thread; j++) {
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split_results[i][j] = sampler(seeds[i]);
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}
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}
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}
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for(int i=0; i<n_threads; i++){
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int lower_bound = i * (n_samples / n_threads);
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int upper_bound = ((i+1) * (n_samples / n_threads)) - 1;
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// printf("Lower bound: %d, upper bound: %d\n", lower_bound, upper_bound);
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for(int j=lower_bound; j<upper_bound; j++){
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results[j] = split_results[i][j-lower_bound];
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}
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}
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for (uint32_t i = 0; i < n_threads; i++) {
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free(seeds[i]);
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}
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free(seeds);
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for(int i=0; i<n_threads; i++){
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free(split_results[i]);
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}
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free(split_results);
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}
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// Functions used for the BOTEC.
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@ -257,7 +275,8 @@ int main()
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float* split_array_results = malloc(N_SAMPLES * sizeof(float));
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paralellize(sample_mixture, split_array_results, n_threads, N_SAMPLES);
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printf("Sum(split_array_results, N_SAMPLES)/N_SAMPLES = %f\n", array_sum(split_array_results, N_SAMPLES) / N_SAMPLES);
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printf("Sum(split_array_results, N_SAMPLES)/N_SAMPLES = %f\n",
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array_sum(split_array_results, N_SAMPLES) / N_SAMPLES);
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free(split_array_results);
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return 0;
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17
C/alt/05-refactor-still-split-array/time.txt
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17
C/alt/05-refactor-still-split-array/time.txt
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Requires /bin/time, found on GNU/Linux systems
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Running 100x and taking avg time: OMP_NUM_THREADS=1 out/samples
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Time using 1 thread: 35.60ms
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Running 100x and taking avg time: OMP_NUM_THREADS=2 out/samples
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Time using 2 threads: 38.40ms
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Running 100x and taking avg time: OMP_NUM_THREADS=4 out/samples
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Time for 4 threads: 26.30ms
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Running 100x and taking avg time: OMP_NUM_THREADS=8 out/samples
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Time using 8 threads: 15.30ms
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Running 100x and taking avg time: OMP_NUM_THREADS=16 out/samples
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Time using 16 threads: 10.40ms
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37
C/alt/06-refactor-one-array/desiderata.md
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37
C/alt/06-refactor-one-array/desiderata.md
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Instead of
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```C
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#pragma omp parallel private(i, sample_index, split_array_length)
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{
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#pragma omp for
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for (i = 0; i < n_threads; i++) {
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split_array_length = split_array_get_length(i, N, n_threads);
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for (int j = 0; j < split_array_length; j++) {
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results[i][j] = sampler(seeds[i]);
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}
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}
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}
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```
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Algo como
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```C
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#pragma omp parallel private(i, sample_index, bounds)
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{
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#pragma omp for
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for (i = 0; i < n_threads; i++) {
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int bounds[2] = split_array_get_bounds(i, N, n_threads);
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for (int j = bound[0]; j < bounds[1] + 1; j++) {
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// o j < bounds[1], no se si el +1 va a ser más elegante
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// dentro o fuera, aunque algo me dice que dentro
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results[j] = sampler(seeds[i]);
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}
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}
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}
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```
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Por qué? Porque esto hace que la estructura subyacente sea un solo array,
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lo cual implica que no *tengo* que utilizar split_array_functions especializadas
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si no quiero
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@ -6,6 +6,7 @@
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# Compiler
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CC=gcc
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# CC=clang
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# CC=tcc # <= faster compilation
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# Main file
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BIN
C/alt/06-refactor-one-array/out/samples
Executable file
BIN
C/alt/06-refactor-one-array/out/samples
Executable file
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220
C/alt/06-refactor-one-array/samples.c
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220
C/alt/06-refactor-one-array/samples.c
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#include <math.h>
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#include <omp.h>
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#include <stdint.h>
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#include <stdio.h>
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#include <stdlib.h>
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const float PI = 3.14159265358979323846;
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#define N_SAMPLES (1024 * 1000 * 1000)
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//Array helpers
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void array_print(float* array, int length)
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{
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for (int i = 0; i < length; i++) {
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printf("item[%d] = %f\n", i, array[i]);
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}
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printf("\n");
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}
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float array_sum(float* array, int length)
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{
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float output = 0.0;
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for (int i = 0; i < length; i++) {
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output += array[i];
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}
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return output;
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}
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void array_cumsum(float* array_to_sum, float* array_cumsummed, int length)
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{
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array_cumsummed[0] = array_to_sum[0];
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for (int i = 1; i < length; i++) {
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array_cumsummed[i] = array_cumsummed[i - 1] + array_to_sum[i];
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}
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}
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// Pseudo Random number generator
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uint32_t xorshift32(uint32_t* seed)
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{
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// Algorithm "xor" from p. 4 of Marsaglia, "Xorshift RN_SAMPLESGs"
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// See <https://stackoverflow.com/questions/53886131/how-does-xorshift32-works>
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// https://en.wikipedia.org/wiki/Xorshift
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// Also some drama: <https://www.pcg-random.org/posts/on-vignas-pcg-critique.html>, <https://prng.di.unimi.it/>
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uint32_t x = *seed;
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x ^= x << 13;
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x ^= x >> 17;
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x ^= x << 5;
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return *seed = x;
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}
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// Distribution & sampling functions
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float rand_0_to_1(uint32_t* seed)
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{
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return ((float)xorshift32(seed)) / ((float)UINT32_MAX);
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/*
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uint32_t x = *seed;
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x ^= x << 13;
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x ^= x >> 17;
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x ^= x << 5;
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return ((float)(*seed = x))/((float) UIN_SAMPLEST32_MAX);
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*/
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// previously:
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// ((float)rand_r(seed) / (float)RAN_SAMPLESD_MAX)
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// and before that: rand, but it wasn't thread-safe.
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// See: <https://stackoverflow.com/questions/43151361/how-to-create-thread-safe-random-number-generator-in-c-using-rand-r> for why to use rand_r:
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// rand() is not thread-safe, as it relies on (shared) hidden seed.
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}
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float rand_float(float max, uint32_t* seed)
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{
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return rand_0_to_1(seed) * max;
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}
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float ur_normal(uint32_t* seed)
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{
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float u1 = rand_0_to_1(seed);
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float u2 = rand_0_to_1(seed);
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float z = sqrtf(-2.0 * log(u1)) * sin(2 * PI * u2);
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return z;
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}
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float random_uniform(float from, float to, uint32_t* seed)
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{
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return rand_0_to_1(seed) * (to - from) + from;
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}
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float random_normal(float mean, float sigma, uint32_t* seed)
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{
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return (mean + sigma * ur_normal(seed));
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}
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float random_lognormal(float logmean, float logsigma, uint32_t* seed)
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{
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return expf(random_normal(logmean, logsigma, seed));
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}
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float random_to(float low, float high, uint32_t* seed)
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{
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const float N_SAMPLESORMAL95CON_SAMPLESFIDEN_SAMPLESCE = 1.6448536269514722;
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float loglow = logf(low);
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float loghigh = logf(high);
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float logmean = (loglow + loghigh) / 2;
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float logsigma = (loghigh - loglow) / (2.0 * N_SAMPLESORMAL95CON_SAMPLESFIDEN_SAMPLESCE);
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return random_lognormal(logmean, logsigma, seed);
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}
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// Mixture function
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float mixture(float (*samplers[])(uint32_t*), float* weights, int n_dists, uint32_t* seed)
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{
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// You can see a slightly simpler version of this function in the git history
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// or in alt/C-02-better-algorithm-one-thread/
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float sum_weights = array_sum(weights, n_dists);
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float* cumsummed_normalized_weights = malloc(n_dists * sizeof(float));
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cumsummed_normalized_weights[0] = weights[0] / sum_weights;
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for (int i = 1; i < n_dists; i++) {
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cumsummed_normalized_weights[i] = cumsummed_normalized_weights[i - 1] + weights[i] / sum_weights;
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}
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//create var holders
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float p1, result;
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int sample_index, i, own_length;
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p1 = random_uniform(0, 1, seed);
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for (int i = 0; i < n_dists; i++) {
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if (p1 < cumsummed_normalized_weights[i]) {
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result = samplers[i](seed);
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break;
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}
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}
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free(cumsummed_normalized_weights);
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return result;
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}
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// Parallization function
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void paralellize(float (*sampler)(uint32_t* seed), float* results, int n_threads, int n_samples){
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if((N_SAMPLES % n_threads) != 0){
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fprintf(stderr, "Number of samples isn't divisible by number of threads, aborting\n");
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exit(1);
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}
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// int n_samples_per_thread = N_SAMPLES / n_thread;
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int sample_index, i, split_array_length;
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uint32_t** seeds = malloc(n_threads * sizeof(uint32_t*));
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for (uint32_t i = 0; i < n_threads; i++) {
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seeds[i] = malloc(sizeof(uint32_t));
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*seeds[i] = i + 1; // xorshift can't start with 0
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}
|
||||
|
||||
#pragma omp parallel private(i, sample_index, split_array_length)
|
||||
{
|
||||
#pragma omp for
|
||||
for (i = 0; i < n_threads; i++) {
|
||||
int lower_bound = i * (n_samples / n_threads);
|
||||
int upper_bound = ((i+1) * (n_samples / n_threads)) - 1;
|
||||
// printf("Lower bound: %d, upper bound: %d\n", lower_bound, upper_bound);
|
||||
for (int j = lower_bound; j < upper_bound; j++) {
|
||||
results[j] = sampler(seeds[i]);
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
for (uint32_t i = 0; i < n_threads; i++) {
|
||||
free(seeds[i]);
|
||||
}
|
||||
free(seeds);
|
||||
}
|
||||
|
||||
// Functions used for the BOTEC.
|
||||
// Their type has to be the same, as we will be passing them around.
|
||||
|
||||
float sample_0(uint32_t* seed)
|
||||
{
|
||||
return 0;
|
||||
}
|
||||
|
||||
float sample_1(uint32_t* seed)
|
||||
{
|
||||
return 1;
|
||||
}
|
||||
|
||||
float sample_few(uint32_t* seed)
|
||||
{
|
||||
return random_to(1, 3, seed);
|
||||
}
|
||||
|
||||
float sample_many(uint32_t* seed)
|
||||
{
|
||||
return random_to(2, 10, seed);
|
||||
}
|
||||
|
||||
float sample_mixture(uint32_t* seed){
|
||||
float p_a, p_b, p_c;
|
||||
|
||||
// Initialize variables
|
||||
p_a = 0.8;
|
||||
p_b = 0.5;
|
||||
p_c = p_a * p_b;
|
||||
|
||||
// Generate mixture
|
||||
int n_dists = 4;
|
||||
float weights[] = { 1 - p_c, p_c / 2, p_c / 4, p_c / 4 };
|
||||
float (*samplers[])(uint32_t*) = { sample_0, sample_1, sample_few, sample_many };
|
||||
|
||||
return mixture(samplers, weights, n_dists, seed);
|
||||
}
|
||||
|
||||
int main()
|
||||
{
|
||||
int n_threads = omp_get_max_threads();
|
||||
float* split_array_results = malloc(N_SAMPLES * sizeof(float));
|
||||
|
||||
paralellize(sample_mixture, split_array_results, n_threads, N_SAMPLES);
|
||||
printf("Sum(split_array_results, N_SAMPLES)/N_SAMPLES = %f\n", array_sum(split_array_results, N_SAMPLES) / N_SAMPLES);
|
||||
|
||||
free(split_array_results);
|
||||
return 0;
|
||||
}
|
17
C/alt/06-refactor-one-array/time.txt
Normal file
17
C/alt/06-refactor-one-array/time.txt
Normal file
|
@ -0,0 +1,17 @@
|
|||
Requires /bin/time, found on GNU/Linux systems
|
||||
|
||||
Running 100x and taking avg time: OMP_NUM_THREADS=1 out/samples
|
||||
Time using 1 thread: 32.30ms
|
||||
|
||||
Running 100x and taking avg time: OMP_NUM_THREADS=2 out/samples
|
||||
Time using 2 threads: 30.80ms
|
||||
|
||||
Running 100x and taking avg time: OMP_NUM_THREADS=4 out/samples
|
||||
Time for 4 threads: 30.50ms
|
||||
|
||||
Running 100x and taking avg time: OMP_NUM_THREADS=8 out/samples
|
||||
Time using 8 threads: 12.90ms
|
||||
|
||||
Running 100x and taking avg time: OMP_NUM_THREADS=16 out/samples
|
||||
Time using 16 threads: 9.10ms
|
||||
|
Loading…
Reference in New Issue
Block a user